Query psy594
Match_columns 218
No_of_seqs 156 out of 1128
Neff 7.6
Searched_HMMs 46136
Date Fri Aug 16 22:22:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy594.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/594hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0733 Na+-dependent transpor 100.0 6.9E-45 1.5E-49 325.0 9.1 195 2-211 51-346 (439)
2 PF00209 SNF: Sodium:neurotran 100.0 9.5E-46 2E-50 343.8 3.3 202 2-205 47-383 (523)
3 KOG3660|consensus 100.0 2.1E-43 4.6E-48 330.3 9.3 203 2-206 80-421 (629)
4 KOG3659|consensus 100.0 1.5E-43 3.3E-48 322.7 7.2 201 1-201 123-457 (629)
5 PF03222 Trp_Tyr_perm: Tryptop 61.5 95 0.0021 28.1 10.1 44 159-202 264-307 (394)
6 TIGR00842 bcct choline/carniti 57.1 29 0.00062 32.3 6.0 43 153-195 342-384 (453)
7 PRK03356 L-carnitine/gamma-but 49.3 29 0.00062 32.8 4.7 44 154-197 392-435 (504)
8 PRK09950 putative transporter; 48.0 40 0.00087 31.9 5.4 45 153-197 388-432 (506)
9 PRK09928 choline transport pro 45.3 45 0.00097 32.7 5.4 57 154-210 396-456 (679)
10 COG1292 BetT Choline-glycine b 41.8 31 0.00068 32.7 3.7 35 158-192 396-430 (537)
11 PF08390 TRAM1: TRAM1-like pro 32.9 1.3E+02 0.0027 20.0 4.6 35 170-206 30-64 (65)
12 PF02532 PsbI: Photosystem II 26.7 71 0.0015 18.8 2.2 16 169-184 10-25 (36)
13 PRK15433 branched-chain amino 26.1 1.1E+02 0.0024 28.5 4.5 52 156-207 266-317 (439)
14 PF09997 DUF2238: Predicted me 25.2 1.2E+02 0.0027 23.6 4.0 55 152-206 4-59 (143)
15 PF02028 BCCT: BCCT family tra 21.0 1.4E+02 0.003 28.1 4.1 43 156-198 381-423 (485)
No 1
>COG0733 Na+-dependent transporters of the SNF family [General function prediction only]
Probab=100.00 E-value=6.9e-45 Score=324.98 Aligned_cols=195 Identities=27% Similarity=0.386 Sum_probs=172.3
Q ss_pred EEEehHHHHHHHHHHHhhcCCChhhHHHhhc--ccccchhhHHHHHh---------hhhhhhhhhc---cCccCCCcccC
Q psy594 2 LFVGGIPLFYMELALGQFHRKGAITCWGRIV--PLFKGKMTRLARMA---------SLTWPPALFI---DGKYFNGLLSG 67 (218)
Q Consensus 2 l~liGiPll~~E~~lGq~~~~~~i~af~~l~--p~~~gvG~~~~~~~---------I~gW~l~Y~~---~~~w~~~~c~~ 67 (218)
++++|+|++++|+++||++|++++++|+++. ++|+++||..++++ |.||++.|++ ++.|.++
T Consensus 51 ~l~~GiPlli~Ef~iGr~~~~~~~~a~~~l~~~~~~~~~G~~gv~~~~~i~sfYsvI~GWil~Y~~~s~tg~~~~~---- 126 (439)
T COG0733 51 LLLVGIPLLLAEFAIGRRGRKNAVGAFRKLAPKKKWEWIGWFGVLGGFLILSFYSVIGGWILSYLVKSLTGALPDT---- 126 (439)
T ss_pred HHHHhHHHHHHHHHhhhhcCCChhHHHHHhccCccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCC----
Confidence 4678999999999999999999999999998 67999999988877 9999999998 7777632
Q ss_pred ccchhHhhhhHHhHhhhccCCCCCCcchhHHHHHHHHHHHHHHhhhhcccccccccc-----------------------
Q psy594 68 VLVLTQHLNGNRYILEMQHSTGLHDLGYIKWDMALCLLAVYLICYFSMWKGISTSGK----------------------- 124 (218)
Q Consensus 68 ~~~~~~~~ff~~~vl~~~~s~~~~~~~~~~~~l~~~l~i~w~iv~~gv~~GIe~~~k----------------------- 124 (218)
.+...++|.+.. ++ ......++ .++++++++++.+|++|||||.+|
T Consensus 127 --~~~~~~~f~~~~-----~~---~~~~~~~~-~~~~~lt~~iv~~GV~~GIEk~~kimMP~Lfvl~i~Lvi~~~tLpGA 195 (439)
T COG0733 127 --GEQFAQLFGQTI-----SN---PGLAVIFH-LLFLVLTALIVSRGVKKGIEKANKIMMPLLFVLFIILVIRAVTLPGA 195 (439)
T ss_pred --hhHHHHHHHHHh-----cC---chHHHHHH-HHHHHHHHHHHHHhHHhhHHHHHHHHHHHHHHHHHHHHHHHHcCccH
Confidence 234556666553 22 12234455 468999999999999999999999
Q ss_pred --cceeeeecCcccCCCceeee----------------------------------------------------------
Q psy594 125 --GIKYYLQPNFDAITKSEVSG---------------------------------------------------------- 144 (218)
Q Consensus 125 --Gl~~~f~pd~~~l~~~~vw~---------------------------------------------------------- 144 (218)
|++|||+||||++.|+++|.
T Consensus 196 ~~G~~f~l~PD~s~l~~~~v~~~AlGQ~FFsLSlG~g~mitYsSYL~k~~~l~~sa~~v~~~n~~~s~lAGl~Ifpa~f~ 275 (439)
T COG0733 196 MEGLKFLFKPDFSKLTDPKVWLAALGQAFFSLSLGFGIMITYSSYLSKKSDLVSSALSIVLLNTLISLLAGLVIFPALFS 275 (439)
T ss_pred HHHHHHHhcCCHHHcCchhhHHHHHHHHHHHHHHHHHHHHHHHhhcCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999
Q ss_pred ----ecCCCceehhhHHHHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHHHHHHhcCCCCcceeeeee
Q psy594 145 ----DTSGPGLVFIVYPAAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAIITALSDGLAMPRDELAGFR 211 (218)
Q Consensus 145 ----~~~G~~L~Fi~~P~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v~~l~d~~~~~R~~a~~~~ 211 (218)
+++||||+|+++|++|+|||.|++++++||+++.+||+||+++++|+++++++|+++++|+|++++-
T Consensus 276 ~g~~~~~GpgL~Fi~LP~if~~mp~G~~~~~lFFl~l~fAalTS~iSmlE~~va~l~~~~~~~R~~a~~~~ 346 (439)
T COG0733 276 FGADASQGPGLVFIVLPAVFNQMPLGTLFGILFFLLLLFAALTSAISMLEVLVAALIDKFGISRKKATWLI 346 (439)
T ss_pred hccCCCCCCeeehhHHHHHHHhCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHHHH
Confidence 7899999999999999999999999999999999999999999999999999999999999998753
No 2
>PF00209 SNF: Sodium:neurotransmitter symporter family; InterPro: IPR000175 Neurotransmitter transport systems are integral to the release, re-uptake and recycling of neurotransmitters at synapses. High affinity transport proteins found in the plasma membrane of presynaptic nerve terminals and glial cells are responsible for the removal from the extracellular space of released-transmitters, thereby terminating their actions []. Plasma membrane neurotransmitter transporters fall into two structurally and mechanistically distinct families. The majority of the transporters constitute an extensive family of homologous proteins that derive energy from the co-transport of Na+ and Cl-, in order to transport neurotransmitter molecules into the cell against their concentration gradient. The family has a common structure of 12 presumed transmembrane helices and includes carriers for gamma-aminobutyric acid (GABA), noradrenaline/adrenaline, dopamine, serotonin, proline, glycine, choline, betaine and taurine. They are structurally distinct from the second more-restricted family of plasma membrane transporters, which are responsible for excitatory amino acid transport. The latter couple glutamate and aspartate uptake to the cotransport of Na+ and the counter-transport of K+, with no apparent dependence on Cl- []. In addition, both of these transporter families are distinct from the vesicular neurotransmitter transporters [, ]. Sequence analysis of the Na+/Cl- neurotransmitter superfamily reveals that it can be divided into four subfamilies, these being transporters for monoamines, the amino acids proline and glycine, GABA, and a group of orphan transporters [].; GO: 0005328 neurotransmitter:sodium symporter activity, 0006836 neurotransmitter transport, 0016021 integral to membrane; PDB: 2QEI_A 3F3C_A 3USP_A 3USK_A 3TU0_A 3GWW_A 3TT3_A 3F4J_A 3USJ_B 3GJC_B ....
Probab=100.00 E-value=9.5e-46 Score=343.84 Aligned_cols=202 Identities=37% Similarity=0.769 Sum_probs=145.0
Q ss_pred EEEehHHHHHHHHHHHhhcCCChhhHHHhhcccccchhhHHHHHh---------hhhhhhhhhc------------cCcc
Q psy594 2 LFVGGIPLFYMELALGQFHRKGAITCWGRIVPLFKGKMTRLARMA---------SLTWPPALFI------------DGKY 60 (218)
Q Consensus 2 l~liGiPll~~E~~lGq~~~~~~i~af~~l~p~~~gvG~~~~~~~---------I~gW~l~Y~~------------~~~w 60 (218)
++++|+|++++|+++||++|+|++++|+|++|++||+|+++++.+ +++|+++|++ ++.|
T Consensus 47 ~~~~giP~~~lE~~lGq~~~~~~~~~~~~~~p~~~giG~~~~~~~~~~~~yy~vi~~w~l~Y~~~s~~~~lpw~~C~~~~ 126 (523)
T PF00209_consen 47 LLLVGIPLLYLELALGQYSRSGPIGAWKRLCPIFKGIGYAMVLISFLIAIYYSVIVAWALYYFFQSFTGPLPWSSCNNSW 126 (523)
T ss_dssp HHHTHHHHHHHHHHHHHHHHTTSHHHS-HHHHHHHTHHHH---HHHHHHHHHHHHHHHHHHHHHH---------------
T ss_pred cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 457899999999999999999999999999999999999998877 8999999998 4567
Q ss_pred CCCcccC----------------ccchhHhhhhHHhHhhhccCCCCCCcchhHHHHHHHHHHHHHHhhhhcccccccccc
Q psy594 61 FNGLLSG----------------VLVLTQHLNGNRYILEMQHSTGLHDLGYIKWDMALCLLAVYLICYFSMWKGISTSGK 124 (218)
Q Consensus 61 ~~~~c~~----------------~~~~~~~~ff~~~vl~~~~s~~~~~~~~~~~~l~~~l~i~w~iv~~gv~~GIe~~~k 124 (218)
|+++|.+ +..+++++||++.++++ ++++++.|.++|+++++++++|.++++++.||||+.+|
T Consensus 127 n~~~c~~~~~~~~~~~~~~~~~~~~~~~~~~ff~~~vl~~--s~~i~~~g~~~~~l~~~l~~~w~iv~~~i~kGi~~~~k 204 (523)
T PF00209_consen 127 NTPNCYDIYSNCNCSNSSSYNFTQRISPAEEFFYREVLQI--SDGISDFGSLSWQLLLCLFIVWLIVFFGIWKGIESIGK 204 (523)
T ss_dssp --------------------------------------------------------HHHHHHHHHHHTTTTTTTHHHHHH
T ss_pred cccccccccccccccccccccccccccccccccccccccc--ccccccccchhHHHHHHHHHHHHHHHHheEeccccccc
Confidence 7777852 12367889999999999 88888899999999999999999999999999999999
Q ss_pred ----------------------------cceeeeecCcccCCCceeee--------------------------------
Q psy594 125 ----------------------------GIKYYLQPNFDAITKSEVSG-------------------------------- 144 (218)
Q Consensus 125 ----------------------------Gl~~~f~pd~~~l~~~~vw~-------------------------------- 144 (218)
|++|+++|||++|.|+++|.
T Consensus 205 v~~~~~~~p~v~l~il~ir~ltl~ga~~Gl~~~~~pd~~~l~~~~vW~~A~~Q~ffsl~ig~G~~it~~Sy~~~~~n~~~ 284 (523)
T PF00209_consen 205 VMYPTLLLPFVLLIILLIRSLTLPGASEGLKFLFTPDWSKLLDPKVWIAALGQVFFSLSIGFGIMITYGSYNKFKNNIFR 284 (523)
T ss_dssp HHHHHHH---HHHHHHHHHHHT-EEHHHHHHHHHSB-TTGTTSHHHHHHHHHHHHHHTTTTSSHHHHHHTTS-TTS-SHH
T ss_pred hhhhhhhhhhEEEEEEEEEEEcCCCCCCceEEEecCCcchhhHHHHHHHHHHHHhhccCCCcceEEEEcCcCCCCccccc
Confidence 99999999999999999999
Q ss_pred --------------------------------------ecCCCceehhhHHHHHhcCCchhHHHHHHHHHHHHHHHHhhh
Q psy594 145 --------------------------------------DTSGPGLVFIVYPAAIATMPGSIFWSLIFFMMLLTLGLDSSF 186 (218)
Q Consensus 145 --------------------------------------~~~G~~L~Fi~~P~~f~~mp~g~~~~~lFF~~l~~agltS~i 186 (218)
+++||||+|+++|++|++||+|++|+++||++++++|+||++
T Consensus 285 ~a~~v~~~~~~~sllag~~if~~~g~~a~~~~~~i~~v~~~g~~L~Fi~~P~~~~~~p~~~~~~~lFFl~l~~agl~S~i 364 (523)
T PF00209_consen 285 DALIVAFINTLVSLLAGLVIFSVLGFLANELGVPISDVPESGPGLAFIVLPEAFSQMPGGRFWAILFFLMLFLAGLTSQI 364 (523)
T ss_dssp HHHHHHHHHHHHHHTTGTHHHHHHHHHHHHHHHHHHH--H-CHHHHHTHHHHHHTTSTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred cceEEEcCchhhhHhHHHHHHhHHhhcccCCCCChhHhhCcCCCchHHHHHHHHHcCCCCcChHHHHHHHHHHHHhhhcC
Confidence 358999999999999999999999999999999999999999
Q ss_pred HhHHHHHHHHHhcCCCCcc
Q psy594 187 GGSEAIITALSDGLAMPRD 205 (218)
Q Consensus 187 ~~~E~~v~~l~d~~~~~R~ 205 (218)
+++|+++++++|+++.+|+
T Consensus 365 ~~~E~iv~~l~d~~~~~~~ 383 (523)
T PF00209_consen 365 SMLEVIVSALMDEFPISRK 383 (523)
T ss_dssp HHHHHHHHHHHHTST----
T ss_pred CceeceeEeeeecCccchh
Confidence 9999999999999998665
No 3
>KOG3660|consensus
Probab=100.00 E-value=2.1e-43 Score=330.33 Aligned_cols=203 Identities=40% Similarity=0.784 Sum_probs=182.3
Q ss_pred EEEehHHHHHHHHHHHhhcCCChhhHHHhhcccccchhhHHHHHh---------hhhhhhhhhc------------cCcc
Q psy594 2 LFVGGIPLFYMELALGQFHRKGAITCWGRIVPLFKGKMTRLARMA---------SLTWPPALFI------------DGKY 60 (218)
Q Consensus 2 l~liGiPll~~E~~lGq~~~~~~i~af~~l~p~~~gvG~~~~~~~---------I~gW~l~Y~~------------~~~w 60 (218)
++++|+|++++|+++||++++||+.+|+|++|.+||+|+++++.+ +++|+++|++ +++|
T Consensus 80 l~l~GlP~~~LE~slGQf~~~g~v~~wrri~Pif~GvG~a~v~~~~~~~~Yy~viiaw~l~Yl~~sf~~~lpW~~C~~~w 159 (629)
T KOG3660|consen 80 LFLFGLPLFFLEMSLGQFTSQGPVSVWRRICPIFKGVGWASVVISALLAIYYIVILAWALYYLFSSFTSDLPWSTCNNPW 159 (629)
T ss_pred HHHhcchHHHHHHHHhhhhcCChHHHHHHhChHhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCChhhcCChh
Confidence 467899999999999999999999999999999999999999888 9999999998 6788
Q ss_pred CCCcccC-----------------ccchhHhhhhHHhHhhhccCC--CCCCcchhHHHHHHHHHHHHHHhhhhccccccc
Q psy594 61 FNGLLSG-----------------VLVLTQHLNGNRYILEMQHST--GLHDLGYIKWDMALCLLAVYLICYFSMWKGIST 121 (218)
Q Consensus 61 ~~~~c~~-----------------~~~~~~~~ff~~~vl~~~~s~--~~~~~~~~~~~l~~~l~i~w~iv~~gv~~GIe~ 121 (218)
|+++|.+ +..++.++++.+..++. ++ ++++.|.++|++++|++++|++|++++.||+++
T Consensus 160 nt~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~g~~~w~L~~~l~~~Wliv~~~i~KGvks 237 (629)
T KOG3660|consen 160 NTEYCLDGTSKQNCANLTKLSNALNFNSPVAEFWENRVLSL--SDGSGIEDFGSINWPLALCLALAWLIVFFCIWKGVKS 237 (629)
T ss_pred cCCccccccccccccccccccchhhhccchhhhhhhhhccc--ccccccccCCCCChHHHHHHHHHHHHHHHHHhhcccc
Confidence 8888863 01234566666666555 33 367899999999999999999999999999999
Q ss_pred ccc----------------------------cceeeeecCcccCCCceeee-----------------------------
Q psy594 122 SGK----------------------------GIKYYLQPNFDAITKSEVSG----------------------------- 144 (218)
Q Consensus 122 ~~k----------------------------Gl~~~f~pd~~~l~~~~vw~----------------------------- 144 (218)
.|| |++||++|||++|.|+++|.
T Consensus 238 ~GKvvY~~a~fPyviL~iLliRgvTL~Ga~~Gi~~~l~~~~~kL~~~~vW~dA~~QiffSlsi~~G~li~laSynk~~nN 317 (629)
T KOG3660|consen 238 SGKVVYFTATFPYVILIVLLIRGVTLPGAGDGINFYLTPDWTKLLDPQVWGDAATQIFFSLSIGFGGLIALASYNKFNNN 317 (629)
T ss_pred cCcEEEEEehhHHHHHHHHHHHHccCCCHHHHHHHHHhhhhHhhcChhhHHHHHHhHHHhHHHHHhhhheeeeeeccCCc
Confidence 999 99999999999999999999
Q ss_pred ------------------------------------------ecCCCceehhhHHHHHhcCCchhHHHHHHHHHHHHHHH
Q psy594 145 ------------------------------------------DTSGPGLVFIVYPAAIATMPGSIFWSLIFFMMLLTLGL 182 (218)
Q Consensus 145 ------------------------------------------~~~G~~L~Fi~~P~~f~~mp~g~~~~~lFF~~l~~agl 182 (218)
+++||+|+|++||+++++||.+++|+.+||+|++++|+
T Consensus 318 ~yrDa~lv~~~~~~tS~~~g~~iFsilGfla~~~~v~~~~~v~~~g~~LaFi~YP~a~~~~p~~plWs~LfF~ml~~LG~ 397 (629)
T KOG3660|consen 318 CYRDAILVVLLDTITSLLAGFAIFSILGFLAHEQGVSDIAEVAKSGPGLAFIAYPEALAQMPLSPLWSGLFFFMLLLLGL 397 (629)
T ss_pred ceeeeeeeeecccHHHHHHHHHHHHHHHHHHHHhCCcchhhccCCCCchhhhhhHHHHHhCcccHHHHHHHHHHHHHHHh
Confidence 57899999999999999999999999999999999999
Q ss_pred HhhhHhHHHHHHHHHhcCCCCcce
Q psy594 183 DSSFGGSEAIITALSDGLAMPRDE 206 (218)
Q Consensus 183 tS~i~~~E~~v~~l~d~~~~~R~~ 206 (218)
+|++.++|++++++.|+|+..|.+
T Consensus 398 ~s~~~~ve~i~t~i~D~Fp~~~~~ 421 (629)
T KOG3660|consen 398 DSQFAIVETIVTAIVDEFPRLRNR 421 (629)
T ss_pred hhHHHHHHHHHHHHHHhccccccc
Confidence 999999999999999999844443
No 4
>KOG3659|consensus
Probab=100.00 E-value=1.5e-43 Score=322.74 Aligned_cols=201 Identities=49% Similarity=0.869 Sum_probs=189.1
Q ss_pred CEEEehHHHHHHHHHHHhhcCCChhhHHHhhcccccchhhHHHHHh---------hhhhhhhhhc------------cCc
Q psy594 1 MLFVGGIPLFYMELALGQFHRKGAITCWGRIVPLFKGKMTRLARMA---------SLTWPPALFI------------DGK 59 (218)
Q Consensus 1 ~l~liGiPll~~E~~lGq~~~~~~i~af~~l~p~~~gvG~~~~~~~---------I~gW~l~Y~~------------~~~ 59 (218)
|+++.|+|++++|+++||+.|+|++++|+|++|.++|+|+++++++ |++|++||++ +++
T Consensus 123 mli~~GvPLfymELaLGQ~~r~g~~gvw~ri~P~l~Gigy~i~~i~~~~~~yyn~i~aWA~~yl~~sft~~lPW~sC~~s 202 (629)
T KOG3659|consen 123 MLIVGGVPLFYMELALGQYHRQGCIGVWRRIAPALKGIGYAICLIAFFVGLYYNVIIAWALYYLFTSFTSNLPWESCPNS 202 (629)
T ss_pred HHHHhccHHHHHHHHHHHHhcccchhHHHHhCHHhcCCchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChhhCCCc
Confidence 3578899999999999999999999999999999999999999998 9999999998 577
Q ss_pred cCCCcccC-----------ccchhHhhhhHHhHhhhccCCCCCCcchhHHHHHHHHHHHHHHhhhhcccccccccc----
Q psy594 60 YFNGLLSG-----------VLVLTQHLNGNRYILEMQHSTGLHDLGYIKWDMALCLLAVYLICYFSMWKGISTSGK---- 124 (218)
Q Consensus 60 w~~~~c~~-----------~~~~~~~~ff~~~vl~~~~s~~~~~~~~~~~~l~~~l~i~w~iv~~gv~~GIe~~~k---- 124 (218)
||+++|.+ +..+++++||++.+|+++++++++|.|+++|++++|++++|+++++.++||+|++||
T Consensus 203 ~n~~~C~~~~~s~~~~~~~ek~s~a~ef~~r~~l~l~~~~~~~d~g~~~~~~~lc~~lv~~liyf~~~kG~kssGKvv~v 282 (629)
T KOG3659|consen 203 WNGPNCFDPTWSKNCDEECEKTSPAQEFWYRKVLGLSESHGLDDLGGPSWTLALCLVLVWLLIYFSLWKGVKSSGKVVWV 282 (629)
T ss_pred ccCCCccCccccccCchhhhccchhHHHHHhhcccccccccccccCCCchHHHHHHHHHHHHHHHHHhccccccceEEee
Confidence 88888873 136788999999999998788899999999999999999999999999999999999
Q ss_pred ------------------------cceeeeecCcccCCCceeee------------------------------------
Q psy594 125 ------------------------GIKYYLQPNFDAITKSEVSG------------------------------------ 144 (218)
Q Consensus 125 ------------------------Gl~~~f~pd~~~l~~~~vw~------------------------------------ 144 (218)
|+.||++||++|+.++.+|+
T Consensus 283 tallPy~Il~illirgl~l~ga~~g~~y~~~~~~~kl~~~~vW~dAAtqiffslg~GfG~L~AfaSyn~F~NNc~rDAll 362 (629)
T KOG3659|consen 283 TALLPYIILLILLVRGLTLPGAKNGIQYYLTPDIEKLKEPSVWIDAATQIFFSLGPGFGVLIAFASYNKFHNNCYRDALL 362 (629)
T ss_pred ehhhHHHHHHHHHHhcccccccccchhheecccHHHHhhHHHHHHHHHHHHhhcCccchhhhhhhhhcccccchhhhhHH
Confidence 89999999999999999999
Q ss_pred --------------------------------------ecCCCceehhhHHHHHhcCCchhHHHHHHHHHHHHHHHHhhh
Q psy594 145 --------------------------------------DTSGPGLVFIVYPAAIATMPGSIFWSLIFFMMLLTLGLDSSF 186 (218)
Q Consensus 145 --------------------------------------~~~G~~L~Fi~~P~~f~~mp~g~~~~~lFF~~l~~agltS~i 186 (218)
..+||||+|++||+++++||.+.+|+++||+||..+|++|++
T Consensus 363 ~S~in~~ts~~sgfviFsvLg~~a~~~y~~~~~~e~~~~~~gp~lafivy~Eait~~~~s~fWs~iFFlmL~~lgl~s~~ 442 (629)
T KOG3659|consen 363 TSIINCLTSFLSGFVIFSVLGYMATLIYPCNEEIEELVAVAGPGLAFIVYPEAITNMPYSSFWSVIFFLMLLTLGLDSMF 442 (629)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccccccccHHHhhhhcCCceEEEehhhHHhcCCchHHHHHHHHHHHHHHhhHhhh
Confidence 457999999999999999999999999999999999999999
Q ss_pred HhHHHHHHHHHhcCC
Q psy594 187 GGSEAIITALSDGLA 201 (218)
Q Consensus 187 ~~~E~~v~~l~d~~~ 201 (218)
+-+|.+++.+.|++.
T Consensus 443 g~~e~iit~l~d~~~ 457 (629)
T KOG3659|consen 443 GGIEAIITPLLDEFY 457 (629)
T ss_pred hhHHHHhccccchhh
Confidence 999999999999983
No 5
>PF03222 Trp_Tyr_perm: Tryptophan/tyrosine permease family; InterPro: IPR018227 Amino acid permeases are integral membrane proteins involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related [, , ]. Aromatic amino acids are concentrated in the cytoplasm of Escherichia coli by 4 distinct transport systems: a general aromatic amino acid permease, and a specific permease for each of the 3 types (Phe, Tyr and Trp) []. It has been shown [] that some permeases in E. coli and related bacteria are evolutionary related. These permeases are proteins of about 400 to 420 amino acids and are located in the cytoplasmic membrane and, like bacterial sugar/cation transporters, are thought to contain 12 transmembrane (TM) regions [] - hydropathy analysis, however, is inconclusive, suggesting the possibility of 10 to 12 membrane-spanning domains []. The best conserved domain is a stretch of 20 residues which seems to be located in a cytoplasmic loop between the first and second transmembrane region.
Probab=61.48 E-value=95 Score=28.14 Aligned_cols=44 Identities=20% Similarity=0.195 Sum_probs=32.7
Q ss_pred HHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHHHHHHhcCCC
Q psy594 159 AIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAIITALSDGLAM 202 (218)
Q Consensus 159 ~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v~~l~d~~~~ 202 (218)
.+++...++....+--+.-++|=.||-++..=...+.+.|.++.
T Consensus 264 ~~~~~~~s~~i~~~~~~fa~~Ai~TSFlGv~lgl~d~l~d~~k~ 307 (394)
T PF03222_consen 264 ALANVSGSPWISILGSIFAFFAIATSFLGVYLGLFDFLADLFKL 307 (394)
T ss_pred HHHhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 34554455666666666677888899999888888899998876
No 6
>TIGR00842 bcct choline/carnitine/betaine transport. properties inherent to their polypeptide chains.
Probab=57.10 E-value=29 Score=32.33 Aligned_cols=43 Identities=9% Similarity=0.133 Sum_probs=33.4
Q ss_pred hhhHHHHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHHHH
Q psy594 153 FIVYPAAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAIITA 195 (218)
Q Consensus 153 Fi~~P~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v~~ 195 (218)
-.++-+++.++|.+.+...++.+++++-=.||+=|..-++...
T Consensus 342 ~~a~~~~l~~lP~~~i~~~l~~il~~if~vTs~DS~s~vla~~ 384 (453)
T TIGR00842 342 ARALFGLLQALPLGTITSALALIVIIIFFITSADSGALVLANT 384 (453)
T ss_pred hhHHHHHHHHCcHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence 3456678999999999999999988888777777665555544
No 7
>PRK03356 L-carnitine/gamma-butyrobetaine antiporter; Provisional
Probab=49.34 E-value=29 Score=32.79 Aligned_cols=44 Identities=14% Similarity=0.025 Sum_probs=32.1
Q ss_pred hhHHHHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHHHHHH
Q psy594 154 IVYPAAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAIITALS 197 (218)
Q Consensus 154 i~~P~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v~~l~ 197 (218)
.++-++++++|.+.+..+++-+++++-=+||+=|..-++...-.
T Consensus 392 ~alf~~l~~lPl~~i~~~l~~il~~if~vTsaDS~t~vla~~ts 435 (504)
T PRK03356 392 RAIIETWAALPLSTATMWGFFILCFIATVTLINACSYTLAMSTC 435 (504)
T ss_pred hHHHHHHHHCcHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHc
Confidence 34557799999999999999888887777776655544444433
No 8
>PRK09950 putative transporter; Provisional
Probab=48.03 E-value=40 Score=31.85 Aligned_cols=45 Identities=2% Similarity=0.072 Sum_probs=33.8
Q ss_pred hhhHHHHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHHHHHH
Q psy594 153 FIVYPAAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAIITALS 197 (218)
Q Consensus 153 Fi~~P~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v~~l~ 197 (218)
-.++-+.++++|.+.+..+++.+++++-=+||+=|..-++.+.-.
T Consensus 388 ~~a~~~~l~~lP~~~i~~~l~~vl~~if~vTs~DS~s~vla~~ts 432 (506)
T PRK09950 388 ETAVQQLLSSLPAGKLFLAAYLGIMIIFLASHMDAVAYTMAATST 432 (506)
T ss_pred chHHHHHHHhCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHc
Confidence 334557799999999999999998888888877666555554433
No 9
>PRK09928 choline transport protein BetT; Provisional
Probab=45.27 E-value=45 Score=32.73 Aligned_cols=57 Identities=14% Similarity=-0.009 Sum_probs=38.4
Q ss_pred hhHHHHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHHHHHHhc----CCCCcceeeee
Q psy594 154 IVYPAAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAIITALSDG----LAMPRDELAGF 210 (218)
Q Consensus 154 i~~P~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v~~l~d~----~~~~R~~a~~~ 210 (218)
.++-+.+.++|.+.+.++++.+++++.=+||+=|..=++.+.-... -+-+|+....|
T Consensus 396 ~alf~~l~~lP~~~i~~~l~~il~~iFfvTSaDS~s~Vla~lts~g~~~~~~pp~~~RifW 456 (679)
T PRK09928 396 RGFYSLLAQYPAFTFSASVATITGLLFYVTSADSGALVLGNFTSKLKDINSDAPNWLRVFW 456 (679)
T ss_pred hHHHHHHHhCcHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHcCCCCCCCCCCcceeeHH
Confidence 3456789999999999999999888887887766555444433322 24455544443
No 10
>COG1292 BetT Choline-glycine betaine transporter [Cell envelope biogenesis, outer membrane]
Probab=41.83 E-value=31 Score=32.70 Aligned_cols=35 Identities=17% Similarity=0.275 Sum_probs=29.0
Q ss_pred HHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHH
Q psy594 158 AAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAI 192 (218)
Q Consensus 158 ~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~ 192 (218)
++++++|.+.+.+.++.+.....-+||+=|..=++
T Consensus 396 ~~l~~lPl~~v~~~~~~~~i~~FfiTsaDS~s~vl 430 (537)
T COG1292 396 QVLSHLPLGTLTSLLALLVIAIFFVTSADSGSYVL 430 (537)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHhhccchHHHHH
Confidence 56899999999999999999999999876654333
No 11
>PF08390 TRAM1: TRAM1-like protein; InterPro: IPR013599 This family comprises sequences that are similar to human TRAM1 (Q15629 from SWISSPROT). This is a transmembrane protein of the endoplasmic reticulum, thought to be involved in the membrane transfer of secretory proteins []. The region featured in this family is found N-terminal to the longevity-assurance protein region (IPR005547 from INTERPRO).
Probab=32.93 E-value=1.3e+02 Score=19.99 Aligned_cols=35 Identities=17% Similarity=0.309 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHhhhHhHHHHHHHHHhcCCCCcce
Q psy594 170 SLIFFMMLLTLGLDSSFGGSEAIITALSDGLAMPRDE 206 (218)
Q Consensus 170 ~~lFF~~l~~agltS~i~~~E~~v~~l~d~~~~~R~~ 206 (218)
..++|-++++..+=+ .++|-+...+..++|++++|
T Consensus 30 ~fV~fy~i~~t~lRa--~~m~yvl~Plar~~gi~k~k 64 (65)
T PF08390_consen 30 YFVFFYIIVFTFLRA--FLMEYVLDPLARKLGISKKK 64 (65)
T ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHcCCCCCC
Confidence 344445455555544 56788888888888988876
No 12
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=26.67 E-value=71 Score=18.83 Aligned_cols=16 Identities=38% Similarity=0.619 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHh
Q psy594 169 WSLIFFMMLLTLGLDS 184 (218)
Q Consensus 169 ~~~lFF~~l~~agltS 184 (218)
..++||..|++.|+-|
T Consensus 10 ~vV~ffv~LFifGfls 25 (36)
T PF02532_consen 10 TVVIFFVSLFIFGFLS 25 (36)
T ss_dssp HHHHHHHHHHHHHHHT
T ss_pred hhHHHHHHHHhccccC
Confidence 4578999999999865
No 13
>PRK15433 branched-chain amino acid transport system 2 carrier protein BrnQ; Provisional
Probab=26.13 E-value=1.1e+02 Score=28.46 Aligned_cols=52 Identities=12% Similarity=-0.012 Sum_probs=39.9
Q ss_pred HHHHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHHHHHHhcCCCCccee
Q psy594 156 YPAAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAIITALSDGLAMPRDEL 207 (218)
Q Consensus 156 ~P~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v~~l~d~~~~~R~~a 207 (218)
+|....+--.|+.-..++=+.+++|.+|++++++-...+.+++.++.+.++.
T Consensus 266 il~~~~~~~~G~~G~~ll~iiv~lACLTTaIGLi~a~a~~f~~~~~isY~~~ 317 (439)
T PRK15433 266 ILHAYVQHTFGGGGSFLLAALIFIACLVTAVGLTCACAEFFAQYVPLSYRTL 317 (439)
T ss_pred HHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcHHHH
Confidence 4554444446777777788888999999999999999999998876555443
No 14
>PF09997 DUF2238: Predicted membrane protein (DUF2238); InterPro: IPR014509 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are predicted to be integral membrane proteins, with several transmembrane segments.
Probab=25.21 E-value=1.2e+02 Score=23.63 Aligned_cols=55 Identities=16% Similarity=0.166 Sum_probs=42.3
Q ss_pred ehhhHHHHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHH-HHHHhcCCCCcce
Q psy594 152 VFIVYPAAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAII-TALSDGLAMPRDE 206 (218)
Q Consensus 152 ~Fi~~P~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v-~~l~d~~~~~R~~ 206 (218)
.++.+.....+.|.++.--.+.++-+.+-.+..-...-|++. .++.|.+|++|.+
T Consensus 4 ~~~~L~~t~rrf~ls~~~y~li~~~~~lh~iG~hYtYa~VP~~~wl~~~fg~~RN~ 59 (143)
T PF09997_consen 4 GLIILIWTYRRFPLSNLAYWLIFLFLVLHMIGGHYTYAEVPYFDWLKDLFGWQRNH 59 (143)
T ss_pred eHHHHHHHHhccCCCHHHHHHHHHHHHHHHhCCccccccCCHHHHHHHHhCCCccc
Confidence 344555667888887777666667777777777888889888 7899999999974
No 15
>PF02028 BCCT: BCCT family transporter; InterPro: IPR000060 These prokaryotic transport proteins belong to a family known as BCCT (for Betaine / Carnitine / Choline Transporters) and are specific for compounds containing a quaternary nitrogen atom. The BCCT proteins contain 12 transmembrane regions and are energized by proton symport. They contain a conserved region with four tryptophans in their central region [].; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2WSX_B 3HFX_A 2WSW_A 4DOJ_B 2WIT_C 4AIN_A 3P03_B.
Probab=20.95 E-value=1.4e+02 Score=28.15 Aligned_cols=43 Identities=16% Similarity=0.233 Sum_probs=36.0
Q ss_pred HHHHHhcCCchhHHHHHHHHHHHHHHHHhhhHhHHHHHHHHHh
Q psy594 156 YPAAIATMPGSIFWSLIFFMMLLTLGLDSSFGGSEAIITALSD 198 (218)
Q Consensus 156 ~P~~f~~mp~g~~~~~lFF~~l~~agltS~i~~~E~~v~~l~d 198 (218)
+-++++++|.+++..++|.+++++-=+||+=|..-++.+.-.+
T Consensus 381 ~~~~l~~lP~~~i~~~~~lil~~~f~vTs~DS~~~~la~~s~~ 423 (485)
T PF02028_consen 381 LFAFLEQLPLSKILSILFLILIFIFFVTSADSATYVLAMLSSK 423 (485)
T ss_dssp HHHHHHTSTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHcC
Confidence 4467899999999999999999998888888887777766555
Done!